Basic Information
VIS ID
TVIS20003884
Fusion event
HPV-chr9:p24.1 integration
Validated
No
Detection method
RNA-Seq
Data source
Curated
Sample type
Tumor
Disease
Head and neck squamous cell carcinoma (HNSCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
28928286
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
Not given
Gene
E7
Start
1516
Host Sequence
Chromosome
chr9
Cytoband
p24.1
Reference genome
GRCh37/hg19
Start
5449225/5449225 (Hg38)
End
5449225/5449225 (Hg38)
Location type
Intergenic
Nearest miRNA
hsa-mir-101-2/Upstream/598850; hsa-let-7a-1/Downstream/558601;
Nearest TSS
ENST00000422679/Upstream/11347; ENST00000474218/Downstream/1278;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/11229, chr9-CpG: 25/Downstream/1184
Nearby gene
CD274(-1277) ;
Upstream sequence
TCATCTACAACATTAAGTCCAAAACTATCTGGAAAGTGTAGTATATCAGGACTACCTTAATTTGGCCCCAGTTCAATGTTATCTTCTGTGCTCCTGGGTC
Downstream sequence
gcagaaacgagatctgttgaagtagtacacagaaactctgaagagagccaagaattcagtctggagtctacacggaggagcaacacccaaaCCTCTACCA
Reference
Koneva, L. A., et al. HPV Integration in HNSCC Correlates with Survival Outcomes, Immune Response Signatures, and Candidate Drivers. Mol Cancer Res ,2018,16(1): 90-102.
Curate